Software Open Access

FLOCK & TRACE 3.1

Duchesne, Pierre; Turgeon, Julie

FLOCK is designed to unravel genetic structure within a collection of genotypes, whether pure or admixed. It is assumed that pure, “source”, samples are not available. The program may be used to solve the “number (K) of populations” problem. Since FLOCK is a non-model algorithm, the populations may originate from sexual as well as clonal reproduction. When K is already known, it may be used to separate pure and admixed specimens into K groups.  FLOCK is a non- Bayesian, non MCMC, method and therefore differs substantially from previous clustering algorithms and processing time is much shorter (20 sweeps). Its working principle is repeated re-allocation of all collected specimens (total sample) to k subsamples.

The methods to map genetic admixture on a set of samples (K known) and to estimate the number of populations K were described respectively in: 

Duchesne P, Turgeon J (2009) FLOCK: a method for quick mapping of admixture without source samples. Molecular Ecology Resources 9: 1333-1344

Duchesne P, Turgeon J (2012) FLOCK Provides Reliable Solutions to the "Number of Populations" Problem Journal of Heredity 2012; doi: 10.1093/jhered/ess038

Three versions of FLOCK are available, one for microsatellite, one for AFLP and one for SNP markers. The basic algorithm, input and output formats are the same in the three versions.

Files (19.8 MB)
Name Size
FLOCK__TRACE_3.1.zip
md5:c4e96d7756794b38583462a2fefee6eb
19.8 MB Download
525
100
views
downloads
All versions This version
Views 525524
Downloads 100100
Data volume 2.0 GB2.0 GB
Unique views 507506
Unique downloads 8686

Share

Cite as